miRNA display CGI


Results 1 - 16 of 16 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28352 3' -53.4 NC_005946.1 + 58102 0.66 0.940746
Target:  5'- uGGCCgCGGCGcCGGG-CaUGCc--UGCCc -3'
miRNA:   3'- -CCGG-GCUGC-GCCCaGaAUGuaaACGG- -5'
28352 3' -53.4 NC_005946.1 + 14983 0.67 0.927391
Target:  5'- cGGUCCGACcccauguuggaggggGCGGGguagaCggGCAcugUGCCg -3'
miRNA:   3'- -CCGGGCUG---------------CGCCCa----GaaUGUaa-ACGG- -5'
28352 3' -53.4 NC_005946.1 + 85135 0.67 0.913536
Target:  5'- gGGCuCCGAUGUGGcGUUgu-CAg--GCCg -3'
miRNA:   3'- -CCG-GGCUGCGCC-CAGaauGUaaaCGG- -5'
28352 3' -53.4 NC_005946.1 + 48279 0.67 0.894179
Target:  5'- aGGCCCGGguaagggugcUGgGGGUgCUUGCAg--GCg -3'
miRNA:   3'- -CCGGGCU----------GCgCCCA-GAAUGUaaaCGg -5'
28352 3' -53.4 NC_005946.1 + 36269 0.67 0.893496
Target:  5'- gGGCuCCGGCggcggugGCGGGUCUggggGgAgcgGCCu -3'
miRNA:   3'- -CCG-GGCUG-------CGCCCAGAa---UgUaaaCGG- -5'
28352 3' -53.4 NC_005946.1 + 8225 0.68 0.880049
Target:  5'- uGCCUGGCGuUGGGUCUgcaGCAgggagGCa -3'
miRNA:   3'- cCGGGCUGC-GCCCAGAa--UGUaaa--CGg -5'
28352 3' -53.4 NC_005946.1 + 100735 0.68 0.872629
Target:  5'- aGCCCGuACGCGGGaUCgcgUugGUUUaaCCa -3'
miRNA:   3'- cCGGGC-UGCGCCC-AGa--AugUAAAc-GG- -5'
28352 3' -53.4 NC_005946.1 + 82672 0.68 0.857108
Target:  5'- gGGCCCuACGCGGGU---GCAaugGCUc -3'
miRNA:   3'- -CCGGGcUGCGCCCAgaaUGUaaaCGG- -5'
28352 3' -53.4 NC_005946.1 + 62235 0.69 0.837343
Target:  5'- uGCCCGGCGCGGGggaagcggaccugUUUACccucgcGCCc -3'
miRNA:   3'- cCGGGCUGCGCCCa------------GAAUGuaaa--CGG- -5'
28352 3' -53.4 NC_005946.1 + 24918 0.7 0.805589
Target:  5'- gGGCuCCGGCGUggaGGGUgUgagccGgGUUUGCCg -3'
miRNA:   3'- -CCG-GGCUGCG---CCCAgAa----UgUAAACGG- -5'
28352 3' -53.4 NC_005946.1 + 24433 0.7 0.786984
Target:  5'- aGCCCGAaaacaGUGGGUUcUGCuug-GCCa -3'
miRNA:   3'- cCGGGCUg----CGCCCAGaAUGuaaaCGG- -5'
28352 3' -53.4 NC_005946.1 + 19324 0.71 0.748073
Target:  5'- aGGUCCGACGUcgaGGGUUggACAcgagagUUUGCa -3'
miRNA:   3'- -CCGGGCUGCG---CCCAGaaUGU------AAACGg -5'
28352 3' -53.4 NC_005946.1 + 66999 0.72 0.655167
Target:  5'- cGGUCCGACgcuguGCGGGUCUuuuacggcaagUACGUcgaaGCCu -3'
miRNA:   3'- -CCGGGCUG-----CGCCCAGA-----------AUGUAaa--CGG- -5'
28352 3' -53.4 NC_005946.1 + 59877 0.73 0.623497
Target:  5'- cGGCCCacGACGCGGGaUCguaaccgGCGggUGCa -3'
miRNA:   3'- -CCGGG--CUGCGCCC-AGaa-----UGUaaACGg -5'
28352 3' -53.4 NC_005946.1 + 63813 0.73 0.60978
Target:  5'- aGGCCCucuuGACGUaGGGUCUggggaccaggagcuUGCAcaugUUUGCCa -3'
miRNA:   3'- -CCGGG----CUGCG-CCCAGA--------------AUGU----AAACGG- -5'
28352 3' -53.4 NC_005946.1 + 13851 1.15 0.001442
Target:  5'- aGGCCCGACGCGGGUCUUACAUUUGCCg -3'
miRNA:   3'- -CCGGGCUGCGCCCAGAAUGUAAACGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.